Literature on the application of single and multi-type branching processes to epidemic response

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Single-type models

• Blumberg S, Lloyd-Smith J. Comparing methods for estimating R0 from the size distribution of sub-critical transmission chains. Epidemics. 2013; 5(3):131–45. doi: https://doi.org/10.1016/j.epidem.2013.05.002 PMID: 24021520
• Blumberg S, Lloyd-Smith JO. Inference of R0 and transmission heterogeneity from the size distribution of stuttering chains. PLoS Comput Biol. 2013; 9(5):e1002993. doi: https://doi.org/10.1371/journal.pcbi.1002993 PMID: 23658504
• Farrington C, Kanaan M, Gay N. Branching process models for surveillance of infectious diseases controlled by mass vaccination. Biostatistics. 2003; 4(2):279. doi: https://doi.org/10.1093/biostatistics/4.2.279 PMID: 12925522
• Nishiura H, Yan P, Sleeman CK, Mode CJ. Estimating the transmission potential of supercritical pro- cesses based on the final size distribution of minor outbreaks. J Theor Biol. 2012; 294:48–55. doi: https://doi.org/10.1016/j.jtbi.2011.10.039 PMID: 22079419

Multi-type models

• Kucharski, A. J., & Edmunds, W. J. (2015). Characterizing the Transmission Potential of Zoonotic Infections from Minor Outbreaks. PLoS Computational Biology, 11(4), 1–17. https://doi.org/10.1371/journal.pcbi.1004154

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This is now a vignette here: https://epiverse-trace.github.io/epichains/articles/branching_process_literature.html